[{"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publist_id":"7944","date_created":"2018-12-11T11:44:41Z","date_updated":"2021-01-12T06:48:16Z","doi":"10.1088/0004-637X/693/2/1628","acknowledgement":"This work was supported by RHESSI funds from the University of California at Berkeley through a contract, SA1868-26308PG, with Montana State University. Funding for our Research Experience for Undergraduates (REU) students was provided by NSF grant ATM-0243923.","year":"2009","status":"public","publication_status":"published","_id":"110","type":"journal_article","title":"Reconnection in three dimensions: The role of spines in three eruptive flares","language":[{"iso":"eng"}],"quality_controlled":"1","volume":693,"oa_version":"None","issue":"2","citation":{"mla":"Des Jardins, Angela, et al. “Reconnection in Three Dimensions: The Role of Spines in Three Eruptive Flares.” <i>The Astrophysical Journal</i>, vol. 693, no. 2, IOP Publishing Ltd., 2009, pp. 1628–36, doi:<a href=\"https://doi.org/10.1088/0004-637X/693/2/1628\">10.1088/0004-637X/693/2/1628</a>.","apa":"Des Jardins, A., Canfield, R., Longcope, D., Fordyce, C., &#38; Waitukaitis, S. R. (2009). Reconnection in three dimensions: The role of spines in three eruptive flares. <i>The Astrophysical Journal</i>. IOP Publishing Ltd. <a href=\"https://doi.org/10.1088/0004-637X/693/2/1628\">https://doi.org/10.1088/0004-637X/693/2/1628</a>","short":"A. Des Jardins, R. Canfield, D. Longcope, C. Fordyce, S.R. Waitukaitis, The Astrophysical Journal 693 (2009) 1628–1636.","ista":"Des Jardins A, Canfield R, Longcope D, Fordyce C, Waitukaitis SR. 2009. Reconnection in three dimensions: The role of spines in three eruptive flares. The Astrophysical Journal. 693(2), 1628–1636.","chicago":"Des Jardins, Angela, Richard Canfield, Dana Longcope, Crystal Fordyce, and Scott R Waitukaitis. “Reconnection in Three Dimensions: The Role of Spines in Three Eruptive Flares.” <i>The Astrophysical Journal</i>. IOP Publishing Ltd., 2009. <a href=\"https://doi.org/10.1088/0004-637X/693/2/1628\">https://doi.org/10.1088/0004-637X/693/2/1628</a>.","ama":"Des Jardins A, Canfield R, Longcope D, Fordyce C, Waitukaitis SR. Reconnection in three dimensions: The role of spines in three eruptive flares. <i>The Astrophysical Journal</i>. 2009;693(2):1628-1636. doi:<a href=\"https://doi.org/10.1088/0004-637X/693/2/1628\">10.1088/0004-637X/693/2/1628</a>","ieee":"A. Des Jardins, R. Canfield, D. Longcope, C. Fordyce, and S. R. Waitukaitis, “Reconnection in three dimensions: The role of spines in three eruptive flares,” <i>The Astrophysical Journal</i>, vol. 693, no. 2. IOP Publishing Ltd., pp. 1628–1636, 2009."},"author":[{"last_name":"Des Jardins","full_name":"Des Jardins, Angela","first_name":"Angela"},{"first_name":"Richard","full_name":"Canfield, Richard","last_name":"Canfield"},{"last_name":"Longcope","full_name":"Longcope, Dana","first_name":"Dana"},{"first_name":"Crystal","full_name":"Fordyce, Crystal","last_name":"Fordyce"},{"orcid":"0000-0002-2299-3176","last_name":"Waitukaitis","full_name":"Waitukaitis, Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","first_name":"Scott R"}],"page":"1628 - 1636","day":"10","publication":"The Astrophysical Journal","month":"03","date_published":"2009-03-10T00:00:00Z","extern":"1","intvolume":"       693","abstract":[{"text":"In order to better understand magnetic reconnection and particle acceleration in solar flares, we compare the RHESSI hard X-ray (HXR) footpoint motions of three flares with a detailed study of the corresponding topology given by a Magnetic Charge Topology model. We analyze the relationship between the footpoint motions and topological spine lines and find that the examined footpoint sources move along spine lines. We present a three-dimensional topological model in which this movement can be understood. As reconnection proceeds, flux is transferred between the reconnecting domains, causing the separator to move. The movement of the separator\\'s chromospheric ends, identified with the HXR footpoints, is along those spine lines on which the separator ends.","lang":"eng"}],"publisher":"IOP Publishing Ltd."},{"oa_version":"None","volume":459,"quality_controlled":"1","citation":{"short":"J. Royer, D. Evans, L. Oyarte, Q. Guo, E. Kapit, M. Möbius, S.R. Waitukaitis, H. Jaeger, Nature 459 (2009) 1110–1113.","ista":"Royer J, Evans D, Oyarte L, Guo Q, Kapit E, Möbius M, Waitukaitis SR, Jaeger H. 2009. High-speed tracking of rupture and clustering in freely falling granular streams. Nature. 459(7250), 1110–1113.","mla":"Royer, John, et al. “High-Speed Tracking of Rupture and Clustering in Freely Falling Granular Streams.” <i>Nature</i>, vol. 459, no. 7250, Nature Publishing Group, 2009, pp. 1110–13, doi:<a href=\"https://doi.org/10.1038/nature08115\">10.1038/nature08115</a>.","apa":"Royer, J., Evans, D., Oyarte, L., Guo, Q., Kapit, E., Möbius, M., … Jaeger, H. (2009). High-speed tracking of rupture and clustering in freely falling granular streams. <i>Nature</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nature08115\">https://doi.org/10.1038/nature08115</a>","ieee":"J. Royer <i>et al.</i>, “High-speed tracking of rupture and clustering in freely falling granular streams,” <i>Nature</i>, vol. 459, no. 7250. Nature Publishing Group, pp. 1110–1113, 2009.","ama":"Royer J, Evans D, Oyarte L, et al. High-speed tracking of rupture and clustering in freely falling granular streams. <i>Nature</i>. 2009;459(7250):1110-1113. doi:<a href=\"https://doi.org/10.1038/nature08115\">10.1038/nature08115</a>","chicago":"Royer, John, Daniel Evans, Loreto Oyarte, Qiti Guo, Eliot Kapit, Matthias Möbius, Scott R Waitukaitis, and Heinrich Jaeger. “High-Speed Tracking of Rupture and Clustering in Freely Falling Granular Streams.” <i>Nature</i>. Nature Publishing Group, 2009. <a href=\"https://doi.org/10.1038/nature08115\">https://doi.org/10.1038/nature08115</a>."},"issue":"7250","page":"1110 - 1113","author":[{"first_name":"John","last_name":"Royer","full_name":"Royer, John"},{"last_name":"Evans","full_name":"Evans, Daniel","first_name":"Daniel"},{"first_name":"Loreto","full_name":"Oyarte, Loreto","last_name":"Oyarte"},{"full_name":"Guo, Qiti","last_name":"Guo","first_name":"Qiti"},{"first_name":"Eliot","last_name":"Kapit","full_name":"Kapit, Eliot"},{"first_name":"Matthias","full_name":"Möbius, Matthias","last_name":"Möbius"},{"orcid":"0000-0002-2299-3176","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","first_name":"Scott R","last_name":"Waitukaitis","full_name":"Waitukaitis, Scott R"},{"first_name":"Heinrich","full_name":"Jaeger, Heinrich","last_name":"Jaeger"}],"day":"25","publication":"Nature","month":"06","extern":"1","date_published":"2009-06-25T00:00:00Z","intvolume":"       459","publisher":"Nature Publishing Group","abstract":[{"lang":"eng","text":"Thin streams of liquid commonly break up into characteristic droplet patterns owing to the surface-tension-driven PlateauRayleigh instability 1-3. Very similar patterns are observed when initially uniform streams of dry granular material break up into clusters of grains4-6, even though flows of macroscopic particles are considered to lack surface tension7,8. Recent studies on freely falling granular streams tracked fluctuations in the stream profile9, but the clustering mechanism remained unresolved because the full evolution of the instability could not be observed. Here we demonstrate that the cluster formation is driven by minute, nanoNewton cohesive forces that arise from a combination of van der Waals interactions and capillary bridges between nanometre-scale surface asperities. Our experiments involve high-speed video imaging of the granular stream in the co-moving frame, control over the properties of the grain surfaces and the use of atomic force microscopy to measure grain-grain interactions. The cohesive forces that we measure correspond to an equivalent surface tension five orders of magnitude below that, of ordinary liquids. We find that, the shapes of these weakly cohesive, non-thermal clusters of macroscopic particles closely resemble droplets resulting from thermally induced rupture of liquid nanojets 10-12."}],"publist_id":"7943","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T11:44:41Z","acknowledgement":"This work was supported by NSF through its MRSEC programme and the Inter-American Materials Collaboration Chicago-Chile, and by the Keck Initiative for Ultrafast Imaging at the University of Chicago.","doi":"10.1038/nature08115","date_updated":"2021-01-12T06:48:21Z","year":"2009","publication_status":"published","status":"public","_id":"111","title":"High-speed tracking of rupture and clustering in freely falling granular streams","type":"journal_article","language":[{"iso":"eng"}]},{"abstract":[{"text":"Over the last decade, the nuclear envelope (NE) has emerged as a key component in the organization and function of the nuclear genome. As many as 100 different proteins are thought to specifically localize to this double membrane that separates the cytoplasm and the nucleoplasm of eukaryotic cells. Selective portals through the NE are formed at sites where the inner and outer nuclear membranes are fused, and the coincident assembly of ∼30 proteins into nuclear pore complexes occurs. These nuclear pore complexes are essential for the control of nucleocytoplasmic exchange. Many of the NE and nuclear pore proteins are thought to play crucial roles in gene regulation and thus are increasingly linked to human diseases.","lang":"eng"}],"publication":"Developmental Cell","external_id":{"pmid":["19922866"]},"date_published":"2009-11-17T00:00:00Z","author":[{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","first_name":"Martin W","last_name":"HETZER","full_name":"HETZER, Martin W","orcid":"0000-0002-2111-992X"},{"first_name":"Susan R.","last_name":"Wente","full_name":"Wente, Susan R."}],"day":"17","pmid":1,"oa_version":"Published Version","issue":"5","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.devcel.2009.10.007"}],"title":"Border control at the nucleus: Biogenesis and organization of the nuclear membrane and pore complexes","type":"journal_article","language":[{"iso":"eng"}],"publication_status":"published","article_type":"review","doi":"10.1016/j.devcel.2009.10.007","keyword":["Developmental Biology","Cell Biology","General Biochemistry","Genetics and Molecular Biology","Molecular Biology"],"year":"2009","publication_identifier":{"issn":["1534-5807"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-04-07T07:53:45Z","intvolume":"        17","publisher":"Elsevier","month":"11","extern":"1","page":"606-616","article_processing_charge":"No","quality_controlled":"1","volume":17,"citation":{"ama":"Hetzer M, Wente SR. Border control at the nucleus: Biogenesis and organization of the nuclear membrane and pore complexes. <i>Developmental Cell</i>. 2009;17(5):606-616. doi:<a href=\"https://doi.org/10.1016/j.devcel.2009.10.007\">10.1016/j.devcel.2009.10.007</a>","chicago":"Hetzer, Martin, and Susan R. Wente. “Border Control at the Nucleus: Biogenesis and Organization of the Nuclear Membrane and Pore Complexes.” <i>Developmental Cell</i>. Elsevier, 2009. <a href=\"https://doi.org/10.1016/j.devcel.2009.10.007\">https://doi.org/10.1016/j.devcel.2009.10.007</a>.","ieee":"M. Hetzer and S. R. Wente, “Border control at the nucleus: Biogenesis and organization of the nuclear membrane and pore complexes,” <i>Developmental Cell</i>, vol. 17, no. 5. Elsevier, pp. 606–616, 2009.","mla":"Hetzer, Martin, and Susan R. Wente. “Border Control at the Nucleus: Biogenesis and Organization of the Nuclear Membrane and Pore Complexes.” <i>Developmental Cell</i>, vol. 17, no. 5, Elsevier, 2009, pp. 606–16, doi:<a href=\"https://doi.org/10.1016/j.devcel.2009.10.007\">10.1016/j.devcel.2009.10.007</a>.","apa":"Hetzer, M., &#38; Wente, S. R. (2009). Border control at the nucleus: Biogenesis and organization of the nuclear membrane and pore complexes. <i>Developmental Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.devcel.2009.10.007\">https://doi.org/10.1016/j.devcel.2009.10.007</a>","ista":"Hetzer M, Wente SR. 2009. Border control at the nucleus: Biogenesis and organization of the nuclear membrane and pore complexes. Developmental Cell. 17(5), 606–616.","short":"M. Hetzer, S.R. Wente, Developmental Cell 17 (2009) 606–616."},"scopus_import":"1","status":"public","_id":"11103","date_updated":"2024-10-14T11:28:25Z","oa":1},{"scopus_import":"1","status":"public","_id":"11105","date_updated":"2024-10-14T11:28:35Z","oa":1,"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/embor.2009.176"}]},"intvolume":"        10","publisher":"EMBO","month":"07","extern":"1","page":"697-705","article_processing_charge":"No","volume":10,"quality_controlled":"1","citation":{"apa":"Capelson, M., &#38; Hetzer, M. (2009). The role of nuclear pores in gene regulation, development and disease. <i>EMBO Reports</i>. EMBO. <a href=\"https://doi.org/10.1038/embor.2009.147\">https://doi.org/10.1038/embor.2009.147</a>","mla":"Capelson, Maya, and Martin Hetzer. “The Role of Nuclear Pores in Gene Regulation, Development and Disease.” <i>EMBO Reports</i>, vol. 10, no. 7, EMBO, 2009, pp. 697–705, doi:<a href=\"https://doi.org/10.1038/embor.2009.147\">10.1038/embor.2009.147</a>.","ista":"Capelson M, Hetzer M. 2009. The role of nuclear pores in gene regulation, development and disease. EMBO reports. 10(7), 697–705.","short":"M. Capelson, M. Hetzer, EMBO Reports 10 (2009) 697–705.","chicago":"Capelson, Maya, and Martin Hetzer. “The Role of Nuclear Pores in Gene Regulation, Development and Disease.” <i>EMBO Reports</i>. EMBO, 2009. <a href=\"https://doi.org/10.1038/embor.2009.147\">https://doi.org/10.1038/embor.2009.147</a>.","ama":"Capelson M, Hetzer M. The role of nuclear pores in gene regulation, development and disease. <i>EMBO reports</i>. 2009;10(7):697-705. doi:<a href=\"https://doi.org/10.1038/embor.2009.147\">10.1038/embor.2009.147</a>","ieee":"M. Capelson and M. Hetzer, “The role of nuclear pores in gene regulation, development and disease,” <i>EMBO reports</i>, vol. 10, no. 7. EMBO, pp. 697–705, 2009."},"title":"The role of nuclear pores in gene regulation, development and disease","type":"journal_article","language":[{"iso":"eng"}],"publication_status":"published","article_type":"original","doi":"10.1038/embor.2009.147","keyword":["Genetics","Molecular Biology","Biochemistry"],"year":"2009","publication_identifier":{"eissn":["1469-3178"],"issn":["1469-221X"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-04-07T07:54:06Z","abstract":[{"text":"Nuclear-pore complexes (NPCs) are large protein channels that span the nuclear envelope (NE), which is a double membrane that encloses the nuclear genome of eukaryotes. Each of the typically 2,000–4,000 pores in the NE of vertebrate cells is composed of multiple copies of 30 different proteins known as nucleoporins. The evolutionarily conserved NPC proteins have the well-characterized function of mediating the transport of molecules between the nucleoplasm and the cytoplasm. Mutations in nucleoporins are often linked to specific developmental defects and disease, and the resulting phenotypes are usually interpreted as the consequences of perturbed nuclear transport activity. However, recent evidence suggests that NPCs have additional functions in chromatin organization and gene regulation, some of which might be independent of nuclear transport. Here, we review the transport-dependent and transport-independent roles of NPCs in the regulation of nuclear function and gene expression.","lang":"eng"}],"publication":"EMBO reports","external_id":{"pmid":["19543230"]},"date_published":"2009-07-01T00:00:00Z","author":[{"full_name":"Capelson, Maya","last_name":"Capelson","first_name":"Maya"},{"orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","first_name":"Martin W","last_name":"HETZER","full_name":"HETZER, Martin W"}],"day":"01","oa_version":"Published Version","pmid":1,"main_file_link":[{"url":"https://doi.org/10.1038/embor.2009.147","open_access":"1"}],"issue":"7"},{"extern":"1","month":"07","publisher":"Rockefeller University Press","intvolume":"       186","citation":{"short":"D.J. Anderson, J.D. Vargas, J.P. Hsiao, M. Hetzer, Journal of Cell Biology 186 (2009) 183–191.","ista":"Anderson DJ, Vargas JD, Hsiao JP, Hetzer M. 2009. Recruitment of functionally distinct membrane proteins to chromatin mediates nuclear envelope formation in vivo. Journal of Cell Biology. 186(2), 183–191.","mla":"Anderson, Daniel J., et al. “Recruitment of Functionally Distinct Membrane Proteins to Chromatin Mediates Nuclear Envelope Formation in Vivo.” <i>Journal of Cell Biology</i>, vol. 186, no. 2, Rockefeller University Press, 2009, pp. 183–91, doi:<a href=\"https://doi.org/10.1083/jcb.200901106\">10.1083/jcb.200901106</a>.","apa":"Anderson, D. J., Vargas, J. D., Hsiao, J. P., &#38; Hetzer, M. (2009). Recruitment of functionally distinct membrane proteins to chromatin mediates nuclear envelope formation in vivo. <i>Journal of Cell Biology</i>. Rockefeller University Press. <a href=\"https://doi.org/10.1083/jcb.200901106\">https://doi.org/10.1083/jcb.200901106</a>","ieee":"D. J. Anderson, J. D. Vargas, J. P. Hsiao, and M. Hetzer, “Recruitment of functionally distinct membrane proteins to chromatin mediates nuclear envelope formation in vivo,” <i>Journal of Cell Biology</i>, vol. 186, no. 2. Rockefeller University Press, pp. 183–191, 2009.","ama":"Anderson DJ, Vargas JD, Hsiao JP, Hetzer M. Recruitment of functionally distinct membrane proteins to chromatin mediates nuclear envelope formation in vivo. <i>Journal of Cell Biology</i>. 2009;186(2):183-191. doi:<a href=\"https://doi.org/10.1083/jcb.200901106\">10.1083/jcb.200901106</a>","chicago":"Anderson, Daniel J., Jesse D. Vargas, Joshua P. Hsiao, and Martin Hetzer. “Recruitment of Functionally Distinct Membrane Proteins to Chromatin Mediates Nuclear Envelope Formation in Vivo.” <i>Journal of Cell Biology</i>. Rockefeller University Press, 2009. <a href=\"https://doi.org/10.1083/jcb.200901106\">https://doi.org/10.1083/jcb.200901106</a>."},"quality_controlled":"1","volume":186,"article_processing_charge":"No","page":"183-191","_id":"11106","status":"public","scopus_import":"1","related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1083/jcb.20090110620090903c"}]},"oa":1,"date_updated":"2024-10-14T11:28:48Z","date_published":"2009-07-20T00:00:00Z","external_id":{"pmid":["19620630"]},"publication":"Journal of Cell Biology","abstract":[{"text":"Formation of the nuclear envelope (NE) around segregated chromosomes occurs by the reshaping of the endoplasmic reticulum (ER), a reservoir for disassembled nuclear membrane components during mitosis. In this study, we show that inner nuclear membrane proteins such as lamin B receptor (LBR), MAN1, Lap2β, and the trans-membrane nucleoporins Ndc1 and POM121 drive the spreading of ER membranes into the emerging NE via their capacity to bind chromatin in a collaborative manner. Despite their redundant functions, decreasing the levels of any of these trans-membrane proteins by RNAi-mediated knockdown delayed NE formation, whereas increasing the levels of any of them had the opposite effect. Furthermore, acceleration of NE formation interferes with chromosome separation during mitosis, indicating that the time frame over which chromatin becomes membrane enclosed is physiologically relevant and regulated. These data suggest that functionally distinct classes of chromatin-interacting membrane proteins, which are present at nonsaturating levels, collaborate to rapidly reestablish the nuclear compartment at the end of mitosis.","lang":"eng"}],"issue":"2","main_file_link":[{"url":"https://doi.org/10.1083/jcb.200901106","open_access":"1"}],"oa_version":"Published Version","pmid":1,"day":"20","author":[{"full_name":"Anderson, Daniel J.","last_name":"Anderson","first_name":"Daniel J."},{"last_name":"Vargas","full_name":"Vargas, Jesse D.","first_name":"Jesse D."},{"full_name":"Hsiao, Joshua P.","last_name":"Hsiao","first_name":"Joshua P."},{"orcid":"0000-0002-2111-992X","full_name":"HETZER, Martin W","last_name":"HETZER","first_name":"Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed"}],"article_type":"original","publication_status":"published","language":[{"iso":"eng"}],"type":"journal_article","title":"Recruitment of functionally distinct membrane proteins to chromatin mediates nuclear envelope formation in vivo","date_created":"2022-04-07T07:54:18Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2009","publication_identifier":{"issn":["0021-9525"],"eissn":["1540-8140"]},"doi":"10.1083/jcb.200901106","keyword":["Cell Biology"]},{"abstract":[{"text":"Nucleocytoplasmic transport occurs exclusively through nuclear pore complexes (NPCs) embedded in pores formed by inner and outer nuclear membrane fusion. The mechanism for de novo pore and NPC biogenesis remains unclear. Reticulons (RTNs) and Yop1/DP1 are conserved membrane protein families required to form and maintain the tubular endoplasmic reticulum (ER) and the postmitotic nuclear envelope. In this study, we report that members of the RTN and Yop1/DP1 families are required for nuclear pore formation. Analysis of Saccharomyces cerevisiae prp20-G282S and nup133Δ NPC assembly mutants revealed perturbations in Rtn1–green fluorescent protein (GFP) and Yop1-GFP ER distribution and colocalization to NPC clusters. Combined deletion of RTN1 and YOP1 resulted in NPC clustering, nuclear import defects, and synthetic lethality with the additional absence of Pom34, Pom152, and Nup84 subcomplex members. We tested for a direct role in NPC biogenesis using Xenopus laevis in vitro assays and found that anti-Rtn4a antibodies specifically inhibited de novo nuclear pore formation. We hypothesize that these ER membrane–bending proteins mediate early NPC assembly steps.","lang":"eng"}],"publication":"Journal of Cell Biology","external_id":{"pmid":["19273614"]},"date_published":"2009-03-09T00:00:00Z","author":[{"full_name":"Dawson, T. Renee","last_name":"Dawson","first_name":"T. Renee"},{"first_name":"Michelle D.","last_name":"Lazarus","full_name":"Lazarus, Michelle D."},{"first_name":"Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W","last_name":"HETZER","orcid":"0000-0002-2111-992X"},{"full_name":"Wente, Susan R.","last_name":"Wente","first_name":"Susan R."}],"day":"09","pmid":1,"oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1083/jcb.200806174"}],"issue":"5","title":"ER membrane–bending proteins are necessary for de novo nuclear pore formation","type":"journal_article","language":[{"iso":"eng"}],"publication_status":"published","article_type":"original","keyword":["Cell Biology"],"doi":"10.1083/jcb.200806174","publication_identifier":{"issn":["0021-9525"],"eissn":["1540-8140"]},"year":"2009","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","date_created":"2022-04-07T07:54:44Z","intvolume":"       184","publisher":"Rockefeller University Press","month":"03","extern":"1","page":"659-675","article_processing_charge":"No","quality_controlled":"1","volume":184,"citation":{"ama":"Dawson TR, Lazarus MD, Hetzer M, Wente SR. ER membrane–bending proteins are necessary for de novo nuclear pore formation. <i>Journal of Cell Biology</i>. 2009;184(5):659-675. doi:<a href=\"https://doi.org/10.1083/jcb.200806174\">10.1083/jcb.200806174</a>","chicago":"Dawson, T. Renee, Michelle D. Lazarus, Martin Hetzer, and Susan R. Wente. “ER Membrane–Bending Proteins Are Necessary for de Novo Nuclear Pore Formation.” <i>Journal of Cell Biology</i>. Rockefeller University Press, 2009. <a href=\"https://doi.org/10.1083/jcb.200806174\">https://doi.org/10.1083/jcb.200806174</a>.","ieee":"T. R. Dawson, M. D. Lazarus, M. Hetzer, and S. R. Wente, “ER membrane–bending proteins are necessary for de novo nuclear pore formation,” <i>Journal of Cell Biology</i>, vol. 184, no. 5. Rockefeller University Press, pp. 659–675, 2009.","mla":"Dawson, T. Renee, et al. “ER Membrane–Bending Proteins Are Necessary for de Novo Nuclear Pore Formation.” <i>Journal of Cell Biology</i>, vol. 184, no. 5, Rockefeller University Press, 2009, pp. 659–75, doi:<a href=\"https://doi.org/10.1083/jcb.200806174\">10.1083/jcb.200806174</a>.","apa":"Dawson, T. R., Lazarus, M. D., Hetzer, M., &#38; Wente, S. R. (2009). ER membrane–bending proteins are necessary for de novo nuclear pore formation. <i>Journal of Cell Biology</i>. Rockefeller University Press. <a href=\"https://doi.org/10.1083/jcb.200806174\">https://doi.org/10.1083/jcb.200806174</a>","short":"T.R. Dawson, M.D. Lazarus, M. Hetzer, S.R. Wente, Journal of Cell Biology 184 (2009) 659–675.","ista":"Dawson TR, Lazarus MD, Hetzer M, Wente SR. 2009. ER membrane–bending proteins are necessary for de novo nuclear pore formation. Journal of Cell Biology. 184(5), 659–675."},"scopus_import":"1","status":"public","_id":"11107","date_updated":"2022-07-18T08:55:05Z","oa":1},{"author":[{"first_name":"Maximiliano A.","full_name":"D'Angelo, Maximiliano A.","last_name":"D'Angelo"},{"full_name":"Raices, Marcela","last_name":"Raices","first_name":"Marcela"},{"first_name":"Siler H.","last_name":"Panowski","full_name":"Panowski, Siler H."},{"first_name":"Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W","last_name":"HETZER","orcid":"0000-0002-2111-992X"}],"day":"23","pmid":1,"oa_version":"Published Version","issue":"2","main_file_link":[{"url":"https://doi.org/10.1016/j.cell.2008.11.037","open_access":"1"}],"abstract":[{"lang":"eng","text":"In dividing cells, nuclear pore complexes (NPCs) disassemble during mitosis and reassemble into the newly forming nuclei. However, the fate of nuclear pores in postmitotic cells is unknown. Here, we show that NPCs, unlike other nuclear structures, do not turn over in differentiated cells. While a subset of NPC components, like Nup153 and Nup50, are continuously exchanged, scaffold nucleoporins, like the Nup107/160 complex, are extremely long-lived and remain incorporated in the nuclear membrane during the entire cellular life span. Besides the lack of nucleoporin expression and NPC turnover, we discovered an age-related deterioration of NPCs, leading to an increase in nuclear permeability and the leaking of cytoplasmic proteins into the nucleus. Our finding that nuclear “leakiness” is dramatically accelerated during aging and that a subset of nucleoporins is oxidatively damaged in old cells suggests that the accumulation of damage at the NPC might be a crucial aging event."}],"publication":"Cell","date_published":"2009-01-23T00:00:00Z","external_id":{"pmid":["19167330"]},"keyword":["General Biochemistry","Genetics and Molecular Biology"],"doi":"10.1016/j.cell.2008.11.037","publication_identifier":{"issn":["0092-8674"]},"year":"2009","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-04-07T07:54:52Z","type":"journal_article","title":"Age-dependent deterioration of nuclear pore complexes causes a loss of nuclear integrity in postmitotic cells","language":[{"iso":"eng"}],"publication_status":"published","article_type":"original","page":"284-295","article_processing_charge":"No","volume":136,"quality_controlled":"1","citation":{"ieee":"M. A. D’Angelo, M. Raices, S. H. Panowski, and M. Hetzer, “Age-dependent deterioration of nuclear pore complexes causes a loss of nuclear integrity in postmitotic cells,” <i>Cell</i>, vol. 136, no. 2. Elsevier, pp. 284–295, 2009.","chicago":"D’Angelo, Maximiliano A., Marcela Raices, Siler H. Panowski, and Martin Hetzer. “Age-Dependent Deterioration of Nuclear Pore Complexes Causes a Loss of Nuclear Integrity in Postmitotic Cells.” <i>Cell</i>. Elsevier, 2009. <a href=\"https://doi.org/10.1016/j.cell.2008.11.037\">https://doi.org/10.1016/j.cell.2008.11.037</a>.","ama":"D’Angelo MA, Raices M, Panowski SH, Hetzer M. Age-dependent deterioration of nuclear pore complexes causes a loss of nuclear integrity in postmitotic cells. <i>Cell</i>. 2009;136(2):284-295. doi:<a href=\"https://doi.org/10.1016/j.cell.2008.11.037\">10.1016/j.cell.2008.11.037</a>","ista":"D’Angelo MA, Raices M, Panowski SH, Hetzer M. 2009. Age-dependent deterioration of nuclear pore complexes causes a loss of nuclear integrity in postmitotic cells. Cell. 136(2), 284–295.","short":"M.A. D’Angelo, M. Raices, S.H. Panowski, M. Hetzer, Cell 136 (2009) 284–295.","mla":"D’Angelo, Maximiliano A., et al. “Age-Dependent Deterioration of Nuclear Pore Complexes Causes a Loss of Nuclear Integrity in Postmitotic Cells.” <i>Cell</i>, vol. 136, no. 2, Elsevier, 2009, pp. 284–95, doi:<a href=\"https://doi.org/10.1016/j.cell.2008.11.037\">10.1016/j.cell.2008.11.037</a>.","apa":"D’Angelo, M. A., Raices, M., Panowski, S. H., &#38; Hetzer, M. (2009). Age-dependent deterioration of nuclear pore complexes causes a loss of nuclear integrity in postmitotic cells. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2008.11.037\">https://doi.org/10.1016/j.cell.2008.11.037</a>"},"intvolume":"       136","publisher":"Elsevier","month":"01","extern":"1","date_updated":"2024-10-14T11:28:59Z","oa":1,"scopus_import":"1","status":"public","_id":"11108"},{"date_updated":"2023-02-23T12:58:33Z","related_material":{"record":[{"id":"7080","relation":"later_version","status":"public"}]},"scopus_import":"1","_id":"11752","status":"public","article_processing_charge":"No","citation":{"ieee":"X. Yang <i>et al.</i>, “Influence of magnetic fields on structural martensitic transitions,” in <i>Journal of Physics: Conference Series</i>, Karlsruhe, Germany, 2009, vol. 200, no. 3.","ama":"Yang X, Riseborough PS, Modic KA, et al. Influence of magnetic fields on structural martensitic transitions. In: <i>Journal of Physics: Conference Series</i>. Vol 200. IOP Publishing; 2009. doi:<a href=\"https://doi.org/10.1088/1742-6596/200/3/032062\">10.1088/1742-6596/200/3/032062</a>","chicago":"Yang, Xiaodong, Peter S Riseborough, Kimberly A Modic, R A Fisher, C P Oppeil, T R Finlayson, J C Cooley, et al. “Influence of Magnetic Fields on Structural Martensitic Transitions.” In <i>Journal of Physics: Conference Series</i>, Vol. 200. IOP Publishing, 2009. <a href=\"https://doi.org/10.1088/1742-6596/200/3/032062\">https://doi.org/10.1088/1742-6596/200/3/032062</a>.","short":"X. Yang, P.S. Riseborough, K.A. Modic, R.A. Fisher, C.P. Oppeil, T.R. Finlayson, J.C. Cooley, J.L. Smith, P.A. Goddard, A.V. Silhanek, J.C. Lashley, in:, Journal of Physics: Conference Series, IOP Publishing, 2009.","ista":"Yang X, Riseborough PS, Modic KA, Fisher RA, Oppeil CP, Finlayson TR, Cooley JC, Smith JL, Goddard PA, Silhanek AV, Lashley JC. 2009. Influence of magnetic fields on structural martensitic transitions. Journal of Physics: Conference Series. ICM: International Conference on Magnetism, JPCS, vol. 200, 032062.","apa":"Yang, X., Riseborough, P. S., Modic, K. A., Fisher, R. A., Oppeil, C. P., Finlayson, T. R., … Lashley, J. C. (2009). Influence of magnetic fields on structural martensitic transitions. In <i>Journal of Physics: Conference Series</i> (Vol. 200). Karlsruhe, Germany: IOP Publishing. <a href=\"https://doi.org/10.1088/1742-6596/200/3/032062\">https://doi.org/10.1088/1742-6596/200/3/032062</a>","mla":"Yang, Xiaodong, et al. “Influence of Magnetic Fields on Structural Martensitic Transitions.” <i>Journal of Physics: Conference Series</i>, vol. 200, no. 3, 032062, IOP Publishing, 2009, doi:<a href=\"https://doi.org/10.1088/1742-6596/200/3/032062\">10.1088/1742-6596/200/3/032062</a>."},"volume":200,"quality_controlled":"1","publisher":"IOP Publishing","intvolume":"       200","extern":"1","month":"07","publication_identifier":{"eissn":["1742-6596"],"issn":["1742-6588"]},"year":"2009","article_number":"032062","doi":"10.1088/1742-6596/200/3/032062","date_created":"2022-08-08T08:43:04Z","alternative_title":["JPCS"],"conference":{"end_date":"2009-07-31","location":"Karlsruhe, Germany","name":"ICM: International Conference on Magnetism","start_date":"2009-07-26"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"title":"Influence of magnetic fields on structural martensitic transitions","type":"conference","publication_status":"published","day":"01","author":[{"last_name":"Yang","full_name":"Yang, Xiaodong","first_name":"Xiaodong"},{"last_name":"Riseborough","full_name":"Riseborough, Peter S","first_name":"Peter S"},{"orcid":"0000-0001-9760-3147","full_name":"Modic, Kimberly A","last_name":"Modic","first_name":"Kimberly A","id":"13C26AC0-EB69-11E9-87C6-5F3BE6697425"},{"first_name":"R A","full_name":"Fisher, R A","last_name":"Fisher"},{"full_name":"Oppeil, C P","last_name":"Oppeil","first_name":"C P"},{"full_name":"Finlayson, T R","last_name":"Finlayson","first_name":"T R"},{"last_name":"Cooley","full_name":"Cooley, J C","first_name":"J C"},{"last_name":"Smith","full_name":"Smith, J L","first_name":"J L"},{"last_name":"Goddard","full_name":"Goddard, P A","first_name":"P A"},{"first_name":"A V","full_name":"Silhanek, A V","last_name":"Silhanek"},{"first_name":"J C","full_name":"Lashley, J C","last_name":"Lashley"}],"issue":"3","oa_version":"None","abstract":[{"lang":"eng","text":"We propose a model which suggests that structural martensitic transitions are related to significant changes in the electronic structure, and are effected by high-magnetic fields. The magnetic field dependence is considered unusual as many influential investigations of martensitic transitions have emphasized that the structural transitions are primarily lattice dynamical and are driven by the entropy due to the phonons. We provide a theoretical framework which can be used to describe the effect of high magnetic field on the transition and lattice dynamics in which the field dependence originates from the dielectric constant. The model is compared with some recent experimental results."}],"date_published":"2009-07-01T00:00:00Z","publication":"Journal of Physics: Conference Series"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","conference":{"location":"Rome, Italy","start_date":"2009-12-14","name":"WINE: International Conference on Web and Internet Economics","end_date":"2009-12-18"},"date_created":"2022-08-11T12:33:38Z","alternative_title":["LNCS"],"doi":"10.1007/978-3-642-10841-9_58","publication_identifier":{"issn":["1611-3349"],"isbn":["9783642108402"]},"year":"2009","publication_status":"published","title":"Bidder optimal assignments for general utilities","type":"conference","language":[{"iso":"eng"}],"oa_version":"None","author":[{"first_name":"Paul","last_name":"Dütting","full_name":"Dütting, Paul"},{"id":"540c9bbd-f2de-11ec-812d-d04a5be85630","first_name":"Monika H","last_name":"Henzinger","full_name":"Henzinger, Monika H","orcid":"0000-0002-5008-6530"},{"first_name":"Ingmar","full_name":"Weber, Ingmar","last_name":"Weber"}],"day":"01","publication":"5th International Workshop on Internet and Network Economics","date_published":"2009-12-01T00:00:00Z","abstract":[{"lang":"eng","text":"We study the problem of matching bidders to items where each bidder i has general, strictly monotonic utility functions u i,j (p j ) expressing her utility of being matched to item j at price p j . For this setting we prove that a bidder optimal outcome always exists, even when the utility functions are non-linear and non-continuous. Furthermore, we give an algorithm to find such a solution. Although the running time of this algorithm is exponential in the number of items, it is polynomial in the number of bidders."}],"related_material":{"record":[{"relation":"later_version","status":"public","id":"11902"}]},"date_updated":"2024-11-06T12:24:12Z","status":"public","_id":"11799","scopus_import":"1","volume":5929,"quality_controlled":"1","citation":{"short":"P. Dütting, M. Henzinger, I. Weber, in:, 5th International Workshop on Internet and Network Economics, Springer Nature, 2009, pp. 575–582.","ista":"Dütting P, Henzinger M, Weber I. 2009. Bidder optimal assignments for general utilities. 5th International Workshop on Internet and Network Economics. WINE: International Conference on Web and Internet Economics, LNCS, vol. 5929, 575–582.","mla":"Dütting, Paul, et al. “Bidder Optimal Assignments for General Utilities.” <i>5th International Workshop on Internet and Network Economics</i>, vol. 5929, Springer Nature, 2009, pp. 575–82, doi:<a href=\"https://doi.org/10.1007/978-3-642-10841-9_58\">10.1007/978-3-642-10841-9_58</a>.","apa":"Dütting, P., Henzinger, M., &#38; Weber, I. (2009). Bidder optimal assignments for general utilities. In <i>5th International Workshop on Internet and Network Economics</i> (Vol. 5929, pp. 575–582). Rome, Italy: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-642-10841-9_58\">https://doi.org/10.1007/978-3-642-10841-9_58</a>","ieee":"P. Dütting, M. Henzinger, and I. Weber, “Bidder optimal assignments for general utilities,” in <i>5th International Workshop on Internet and Network Economics</i>, Rome, Italy, 2009, vol. 5929, pp. 575–582.","chicago":"Dütting, Paul, Monika Henzinger, and Ingmar Weber. “Bidder Optimal Assignments for General Utilities.” In <i>5th International Workshop on Internet and Network Economics</i>, 5929:575–82. Springer Nature, 2009. <a href=\"https://doi.org/10.1007/978-3-642-10841-9_58\">https://doi.org/10.1007/978-3-642-10841-9_58</a>.","ama":"Dütting P, Henzinger M, Weber I. Bidder optimal assignments for general utilities. In: <i>5th International Workshop on Internet and Network Economics</i>. Vol 5929. Springer Nature; 2009:575-582. doi:<a href=\"https://doi.org/10.1007/978-3-642-10841-9_58\">10.1007/978-3-642-10841-9_58</a>"},"page":"575-582","article_processing_charge":"No","month":"12","extern":"1","intvolume":"      5929","publisher":"Springer Nature"},{"publication":"18th International World Wide Web Conference","month":"04","date_published":"2009-04-01T00:00:00Z","extern":"1","abstract":[{"lang":"eng","text":"Given only the URL of a web page, can we identify its topic? This is the question that we examine in this paper. Usually, web pages are classified using their content, but a URL-only classifier is preferable, (i) when speed is crucial, (ii) to enable content filtering before an (objection-able) web page is downloaded, (iii) when a page's content is hidden in images, (iv) to annotate hyperlinks in a personalized web browser, without fetching the target page, and (v) when a focused crawler wants to infer the topic of a target page before devoting bandwidth to download it. We apply a machine learning approach to the topic identification task and evaluate its performance in extensive experiments on categorized web pages from the Open Directory Project (ODP). When training separate binary classifiers for each topic, we achieve typical F-measure values between 80 and 85, and a typical precision of around 85. We also ran experiments on a small data set of university web pages. For the task of classifying these pages into faculty, student, course and project pages, our methods improve over previous approaches by 13.8 points of F-measure."}],"publisher":"Association for Computing Machinery","oa_version":"None","quality_controlled":"1","citation":{"ista":"Baykan E, Henzinger M, Marian L, Weber I. 2009. Purely URL-based topic classification. 18th International World Wide Web Conference. WWW: Conference on World Wide Web, 1109–1110.","short":"E. Baykan, M. Henzinger, L. Marian, I. Weber, in:, 18th International World Wide Web Conference, Association for Computing Machinery, 2009, pp. 1109–1110.","apa":"Baykan, E., Henzinger, M., Marian, L., &#38; Weber, I. (2009). Purely URL-based topic classification. In <i>18th International World Wide Web Conference</i> (pp. 1109–1110). New York, NY, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/1526709.1526880\">https://doi.org/10.1145/1526709.1526880</a>","mla":"Baykan, Eda, et al. “Purely URL-Based Topic Classification.” <i>18th International World Wide Web Conference</i>, Association for Computing Machinery, 2009, pp. 1109–10, doi:<a href=\"https://doi.org/10.1145/1526709.1526880\">10.1145/1526709.1526880</a>.","ieee":"E. Baykan, M. Henzinger, L. Marian, and I. Weber, “Purely URL-based topic classification,” in <i>18th International World Wide Web Conference</i>, New York, NY, United States, 2009, pp. 1109–1110.","chicago":"Baykan, Eda, Monika Henzinger, Ludmila Marian, and Ingmar Weber. “Purely URL-Based Topic Classification.” In <i>18th International World Wide Web Conference</i>, 1109–10. Association for Computing Machinery, 2009. <a href=\"https://doi.org/10.1145/1526709.1526880\">https://doi.org/10.1145/1526709.1526880</a>.","ama":"Baykan E, Henzinger M, Marian L, Weber I. Purely URL-based topic classification. In: <i>18th International World Wide Web Conference</i>. Association for Computing Machinery; 2009:1109-1110. doi:<a href=\"https://doi.org/10.1145/1526709.1526880\">10.1145/1526709.1526880</a>"},"author":[{"full_name":"Baykan, Eda","last_name":"Baykan","first_name":"Eda"},{"last_name":"Henzinger","full_name":"Henzinger, Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","first_name":"Monika H","orcid":"0000-0002-5008-6530"},{"full_name":"Marian, Ludmila","last_name":"Marian","first_name":"Ludmila"},{"last_name":"Weber","full_name":"Weber, Ingmar","first_name":"Ingmar"}],"page":"1109-1110","article_processing_charge":"No","day":"01","status":"public","publication_status":"published","_id":"11905","title":"Purely URL-based topic classification","type":"conference","scopus_import":"1","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","conference":{"location":"New York, NY, United States","name":"WWW: Conference on World Wide Web","start_date":"2009-04-20","end_date":"2009-04-24"},"date_created":"2022-08-17T11:49:53Z","date_updated":"2024-11-06T12:24:48Z","doi":"10.1145/1526709.1526880","publication_identifier":{"isbn":["978-1-60558-487-4"]},"year":"2009"},{"day":"01","article_processing_charge":"No","page":"61-70","author":[{"first_name":"Ossama","full_name":"Abdel Hamid, Ossama","last_name":"Abdel Hamid"},{"first_name":"Behshad","last_name":"Behzadi","full_name":"Behzadi, Behshad"},{"first_name":"Stefan","last_name":"Christoph","full_name":"Christoph, Stefan"},{"orcid":"0000-0002-5008-6530","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","first_name":"Monika H","last_name":"Henzinger","full_name":"Henzinger, Monika H"}],"citation":{"ieee":"O. Abdel Hamid, B. Behzadi, S. Christoph, and M. Henzinger, “Detecting the origin of text segments efficiently,” in <i>18th International World Wide Web Conference</i>, Madrid, Spain, 2009, pp. 61–70.","chicago":"Abdel Hamid, Ossama, Behshad Behzadi, Stefan Christoph, and Monika Henzinger. “Detecting the Origin of Text Segments Efficiently.” In <i>18th International World Wide Web Conference</i>, 61–70. Association for Computing Machinery, 2009. <a href=\"https://doi.org/10.1145/1526709.1526719\">https://doi.org/10.1145/1526709.1526719</a>.","ama":"Abdel Hamid O, Behzadi B, Christoph S, Henzinger M. Detecting the origin of text segments efficiently. In: <i>18th International World Wide Web Conference</i>. Association for Computing Machinery; 2009:61-70. doi:<a href=\"https://doi.org/10.1145/1526709.1526719\">10.1145/1526709.1526719</a>","short":"O. Abdel Hamid, B. Behzadi, S. Christoph, M. Henzinger, in:, 18th International World Wide Web Conference, Association for Computing Machinery, 2009, pp. 61–70.","ista":"Abdel Hamid O, Behzadi B, Christoph S, Henzinger M. 2009. Detecting the origin of text segments efficiently. 18th International World Wide Web Conference. WWW: International Conference on World Wide Web, 61–70.","apa":"Abdel Hamid, O., Behzadi, B., Christoph, S., &#38; Henzinger, M. (2009). Detecting the origin of text segments efficiently. In <i>18th International World Wide Web Conference</i> (pp. 61–70). Madrid, Spain: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/1526709.1526719\">https://doi.org/10.1145/1526709.1526719</a>","mla":"Abdel Hamid, Ossama, et al. “Detecting the Origin of Text Segments Efficiently.” <i>18th International World Wide Web Conference</i>, Association for Computing Machinery, 2009, pp. 61–70, doi:<a href=\"https://doi.org/10.1145/1526709.1526719\">10.1145/1526709.1526719</a>."},"oa_version":"None","quality_controlled":"1","publisher":"Association for Computing Machinery","abstract":[{"text":"In the origin detection problem an algorithm is given a set S of documents, ordered by creation time, and a query document D. It needs to output for every consecutive sequence of k alphanumeric terms in D the earliest document in $S$ in which the sequence appeared (if such a document exists). Algorithms for the origin detection problem can, for example, be used to detect the \"origin\" of text segments in D and thus to detect novel content in D. They can also find the document from which the author of D has copied the most (or show that D is mostly original.) We concentrate on solutions that use only a fixed amount of memory. We propose novel algorithms for this problem and evaluate them together with a large number of previously published algorithms. Our results show that (1) detecting the origin of text segments efficiently can be done with very high accuracy even when the space used is less than 1% of the size of the documents in $S$, (2) the precision degrades smoothly with the amount of available space, (3) various estimation techniques can be used to increase the performance of the algorithms.","lang":"eng"}],"extern":"1","date_published":"2009-04-01T00:00:00Z","month":"04","publication":"18th International World Wide Web Conference","year":"2009","publication_identifier":{"isbn":["978-160558487-4"]},"doi":"10.1145/1526709.1526719","date_updated":"2024-11-06T12:25:00Z","date_created":"2022-08-17T11:54:30Z","conference":{"location":"Madrid, Spain","start_date":"2009-04-20","name":"WWW: International Conference on World Wide Web","end_date":"2009-04-24"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"title":"Detecting the origin of text segments efficiently","type":"conference","scopus_import":"1","_id":"11906","publication_status":"published","status":"public"},{"alternative_title":["LIPIcs"],"date_created":"2022-08-18T06:57:25Z","conference":{"name":"STACS: Symposium on Theoretical Aspects of Computer Science","start_date":"2009-02-26","location":"Freiburg, Germany","end_date":"2009-02-28"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2009","publication_identifier":{"isbn":["978-3-939897-09-5"],"issn":["1868-8969"]},"doi":"10.4230/LIPICS.STACS.2009.1809","publication_status":"published","language":[{"iso":"eng"}],"title":"A comparison of techniques for sampling web pages","type":"conference","main_file_link":[{"open_access":"1","url":"https://doi.org/10.4230/LIPIcs.STACS.2009.1809"}],"oa_version":"Published Version","day":"01","author":[{"first_name":" Eda","last_name":"Baykan","full_name":"Baykan,  Eda"},{"orcid":"0000-0002-5008-6530","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","first_name":"Monika H","last_name":"Henzinger","full_name":"Henzinger, Monika H"},{"first_name":"Stefan F.","last_name":"Keller","full_name":"Keller, Stefan F."},{"first_name":"Sebastian","full_name":"de Castelberg, Sebastian","last_name":"de Castelberg"},{"last_name":"Kinzler","full_name":"Kinzler, Markus","first_name":"Markus"}],"date_published":"2009-02-01T00:00:00Z","external_id":{"arxiv":["0902.1604"]},"publication":"26th International Symposium on Theoretical Aspects of Computer Science","abstract":[{"text":"As the World Wide Web is growing rapidly, it is getting increasingly challenging to gather representative information about it. Instead of crawling the web exhaustively one has to resort to other techniques like sampling to determine the properties of the web. A uniform random sample of the web would be useful to determine the percentage of web pages in a specific language, on a topic or in a top level domain. Unfortunately, no approach has been shown to sample the web pages in an unbiased way. Three promising web sampling algorithms are based on random walks. They each have been evaluated individually, but making a comparison on different data sets is not possible. We directly compare these algorithms in this paper. We performed three random walks on the web under the same conditions and analyzed their outcomes in detail. We discuss the strengths and the weaknesses of each algorithm and propose improvements based on experimental results.","lang":"eng"}],"oa":1,"date_updated":"2024-11-06T12:25:24Z","_id":"11912","status":"public","scopus_import":"1","arxiv":1,"citation":{"apa":"Baykan,  Eda, Henzinger, M., Keller, S. F., de Castelberg, S., &#38; Kinzler, M. (2009). A comparison of techniques for sampling web pages. In <i>26th International Symposium on Theoretical Aspects of Computer Science</i> (Vol. 3, pp. 13–30). Freiburg, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPICS.STACS.2009.1809\">https://doi.org/10.4230/LIPICS.STACS.2009.1809</a>","mla":"Baykan,  Eda, et al. “A Comparison of Techniques for Sampling Web Pages.” <i>26th International Symposium on Theoretical Aspects of Computer Science</i>, vol. 3, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2009, pp. 13–30, doi:<a href=\"https://doi.org/10.4230/LIPICS.STACS.2009.1809\">10.4230/LIPICS.STACS.2009.1809</a>.","ista":"Baykan  Eda, Henzinger M, Keller SF, de Castelberg S, Kinzler M. 2009. A comparison of techniques for sampling web pages. 26th International Symposium on Theoretical Aspects of Computer Science. STACS: Symposium on Theoretical Aspects of Computer Science, LIPIcs, vol. 3, 13–30.","short":"Eda Baykan, M. Henzinger, S.F. Keller, S. de Castelberg, M. Kinzler, in:, 26th International Symposium on Theoretical Aspects of Computer Science, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2009, pp. 13–30.","chicago":"Baykan,  Eda, Monika Henzinger, Stefan F. Keller, Sebastian de Castelberg, and Markus Kinzler. “A Comparison of Techniques for Sampling Web Pages.” In <i>26th International Symposium on Theoretical Aspects of Computer Science</i>, 3:13–30. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2009. <a href=\"https://doi.org/10.4230/LIPICS.STACS.2009.1809\">https://doi.org/10.4230/LIPICS.STACS.2009.1809</a>.","ama":"Baykan  Eda, Henzinger M, Keller SF, de Castelberg S, Kinzler M. A comparison of techniques for sampling web pages. In: <i>26th International Symposium on Theoretical Aspects of Computer Science</i>. Vol 3. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2009:13-30. doi:<a href=\"https://doi.org/10.4230/LIPICS.STACS.2009.1809\">10.4230/LIPICS.STACS.2009.1809</a>","ieee":"Eda Baykan, M. Henzinger, S. F. Keller, S. de Castelberg, and M. Kinzler, “A comparison of techniques for sampling web pages,” in <i>26th International Symposium on Theoretical Aspects of Computer Science</i>, Freiburg, Germany, 2009, vol. 3, pp. 13–30."},"quality_controlled":"1","volume":3,"article_processing_charge":"No","page":"13-30","extern":"1","month":"02","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","intvolume":"         3"},{"title":"Structural basis for the mechanism of respiratory complex I","type":"journal_article","_id":"1971","status":"public","publication_status":"published","year":"2009","date_updated":"2021-01-12T06:54:26Z","acknowledgement":"This work was supported by the Medical Research Council. ","doi":"10.1074/jbc.M109.032144","date_created":"2018-12-11T11:54:59Z","publist_id":"5114","abstract":[{"lang":"eng","text":"Complex I plays a central role in cellular energy production, coupling electron transfer between NADH and quinone to proton translocation. The mechanism of this highly efficient enzyme is currently unknown. Mitochondrial complex I is a major source of reactive oxygen species, which may be one of the causes of aging. Dysfunction of complex I is implicated in many human neurodegenerative diseases. We have determined several x-ray structures of the oxidized and reduced hydrophilic domain of complex I from Thermus thermophilus at up to 3.1 Å resolution. The structures reveal the mode of interaction of complex I with NADH, explaining known kinetic data and providing implications for the mechanism of reactive oxygen species production at the flavin site of complex I. Bound metals were identified in the channel at the interface with the frataxin-like subunit Nqo15, indicating possible iron-binding sites. Conformational changes upon reduction of the complex involve adjustments in the nucleotide-binding pocket, as well as small but significant shifts of several α-helices at the interface with the membrane domain. These shifts are likely to be driven by the reduction of nearby iron-sulfur clusters N2 and N6a/b. Cluster N2 is the electron donor to quinone and is coordinated by unique motif involving two consecutive (tandem) cysteines. An unprecedented &quot;on/off switch&quot; (disconnection) of coordinating bonds between the tandem cysteines and this cluster was observed upon reduction. Comparison of the structures suggests a novel mechanism of coupling between electron transfer and proton translocation, combining conformational changes and protonation/deprotonation of tandem cysteines."}],"publisher":"American Society for Biochemistry and Molecular Biology","intvolume":"       284","date_published":"2009-10-23T00:00:00Z","extern":1,"month":"10","publication":"Journal of Biological Chemistry","day":"23","author":[{"last_name":"Berrisford","full_name":"Berrisford, John M","first_name":"John"},{"orcid":"0000-0002-0977-7989","full_name":"Leonid Sazanov","last_name":"Sazanov","first_name":"Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"}],"page":"29773 - 29783","issue":"43","citation":{"ama":"Berrisford J, Sazanov LA. Structural basis for the mechanism of respiratory complex I. <i>Journal of Biological Chemistry</i>. 2009;284(43):29773-29783. doi:<a href=\"https://doi.org/10.1074/jbc.M109.032144\">10.1074/jbc.M109.032144</a>","chicago":"Berrisford, John, and Leonid A Sazanov. “Structural Basis for the Mechanism of Respiratory Complex I.” <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology, 2009. <a href=\"https://doi.org/10.1074/jbc.M109.032144\">https://doi.org/10.1074/jbc.M109.032144</a>.","ieee":"J. Berrisford and L. A. Sazanov, “Structural basis for the mechanism of respiratory complex I,” <i>Journal of Biological Chemistry</i>, vol. 284, no. 43. American Society for Biochemistry and Molecular Biology, pp. 29773–29783, 2009.","apa":"Berrisford, J., &#38; Sazanov, L. A. (2009). Structural basis for the mechanism of respiratory complex I. <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology. <a href=\"https://doi.org/10.1074/jbc.M109.032144\">https://doi.org/10.1074/jbc.M109.032144</a>","mla":"Berrisford, John, and Leonid A. Sazanov. “Structural Basis for the Mechanism of Respiratory Complex I.” <i>Journal of Biological Chemistry</i>, vol. 284, no. 43, American Society for Biochemistry and Molecular Biology, 2009, pp. 29773–83, doi:<a href=\"https://doi.org/10.1074/jbc.M109.032144\">10.1074/jbc.M109.032144</a>.","short":"J. Berrisford, L.A. Sazanov, Journal of Biological Chemistry 284 (2009) 29773–29783.","ista":"Berrisford J, Sazanov LA. 2009. Structural basis for the mechanism of respiratory complex I. Journal of Biological Chemistry. 284(43), 29773–29783."},"volume":284,"quality_controlled":0},{"date_updated":"2021-01-12T06:54:30Z","doi":"10.1016/j.jsb.2009.03.016","year":"2009","publist_id":"5099","date_created":"2018-12-11T11:55:03Z","type":"journal_article","title":"Biomimetic membrane systems to study cellular organization","status":"public","publication_status":"published","_id":"1983","author":[{"orcid":"0000-0001-7309-9724","full_name":"Martin Loose","last_name":"Loose","first_name":"Martin","id":"462D4284-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Schwille","full_name":"Schwille, Petra ","first_name":"Petra"}],"page":"143 - 151","day":"01","quality_controlled":0,"volume":168,"issue":"1","citation":{"ieee":"M. Loose and P. Schwille, “Biomimetic membrane systems to study cellular organization,” <i>Journal of Structural Biology</i>, vol. 168, no. 1. Academic Press, pp. 143–151, 2009.","ama":"Loose M, Schwille P. Biomimetic membrane systems to study cellular organization. <i>Journal of Structural Biology</i>. 2009;168(1):143-151. doi:<a href=\"https://doi.org/10.1016/j.jsb.2009.03.016\">10.1016/j.jsb.2009.03.016</a>","chicago":"Loose, Martin, and Petra Schwille. “Biomimetic Membrane Systems to Study Cellular Organization.” <i>Journal of Structural Biology</i>. Academic Press, 2009. <a href=\"https://doi.org/10.1016/j.jsb.2009.03.016\">https://doi.org/10.1016/j.jsb.2009.03.016</a>.","short":"M. Loose, P. Schwille, Journal of Structural Biology 168 (2009) 143–151.","ista":"Loose M, Schwille P. 2009. Biomimetic membrane systems to study cellular organization. Journal of Structural Biology. 168(1), 143–151.","apa":"Loose, M., &#38; Schwille, P. (2009). Biomimetic membrane systems to study cellular organization. <i>Journal of Structural Biology</i>. Academic Press. <a href=\"https://doi.org/10.1016/j.jsb.2009.03.016\">https://doi.org/10.1016/j.jsb.2009.03.016</a>","mla":"Loose, Martin, and Petra Schwille. “Biomimetic Membrane Systems to Study Cellular Organization.” <i>Journal of Structural Biology</i>, vol. 168, no. 1, Academic Press, 2009, pp. 143–51, doi:<a href=\"https://doi.org/10.1016/j.jsb.2009.03.016\">10.1016/j.jsb.2009.03.016</a>."},"intvolume":"       168","abstract":[{"lang":"eng","text":"During many cellular processes such as cell division, polarization and motility, the plasma membrane does not only represent a passive physical barrier, but also provides a highly dynamic platform for the interplay between lipids, membrane binding proteins and cytoskeletal elements. Even though many regulators of these interactions are known, their mutual interdependence appears to be highly complex and difficult to study in a living cell. Over the past few years, in vitro studies on membrane-cytoskeleton interactions using biomimetic membranes turned out to be extremely helpful to get better mechanistic insight into the dynamics of these processes. In this review, we discuss some of the recent developments using in vitro assays to dissect the role of the players involved: lipids in the membrane, proteins binding to membranes and proteins binding to membrane proteins. We also summarize advantages and disadvantages of supported lipid bilayers as model membrane."}],"publisher":"Academic Press","publication":"Journal of Structural Biology","month":"10","date_published":"2009-10-01T00:00:00Z","extern":1},{"month":"08","publication":"Cell","extern":1,"date_published":"2009-08-07T00:00:00Z","intvolume":"       138","publisher":"Cell Press","abstract":[{"text":"In animal and plant cells, mitotic chromatin locally generates microtubules that self-organize into a mitotic spindle, and its dimensions and bipolar symmetry are essential for accurate chromosome segregation. By immobilizing microscopic chromatin-coated beads on slide surfaces using a microprinting technique, we have examined the effect of chromatin on the dimensions and symmetry of spindles in Xenopus laevis cytoplasmic extracts. While circular spots with diameters around 14-18 μm trigger bipolar spindle formation, larger spots generate an incorrect number of poles. We also examined lines of chromatin with various dimensions. Their length determined the number of poles that formed, with a 6 × 18 μm rectangular patch generating normal spindle morphology. Around longer lines, multiple poles formed and the structures were disorganized. While lines thinner than 10 μm generated symmetric structures, thicker lines induced the formation of asymmetric structures where all microtubules are on the same side of the line. Our results show that chromatin defines spindle shape and orientation. For a video summary of this article, see the PaperFlick file available with the online Supplemental Data.","lang":"eng"}],"volume":138,"quality_controlled":0,"citation":{"ieee":"A. Dinarina <i>et al.</i>, “Chromatin shapes the mitotic spindle,” <i>Cell</i>, vol. 138, no. 3. Cell Press, pp. 502–513, 2009.","ama":"Dinarina A, Pugieux C, Corral M, et al. Chromatin shapes the mitotic spindle. <i>Cell</i>. 2009;138(3):502-513. doi:<a href=\"https://doi.org/10.1016/j.cell.2009.05.027\">10.1016/j.cell.2009.05.027</a>","chicago":"Dinarina, Ana, Céline Pugieux, Maria Corral, Martin Loose, Joachim Spatz, Éric Karsenti, and François Nédélec. “Chromatin Shapes the Mitotic Spindle.” <i>Cell</i>. Cell Press, 2009. <a href=\"https://doi.org/10.1016/j.cell.2009.05.027\">https://doi.org/10.1016/j.cell.2009.05.027</a>.","ista":"Dinarina A, Pugieux C, Corral M, Loose M, Spatz J, Karsenti É, Nédélec F. 2009. Chromatin shapes the mitotic spindle. Cell. 138(3), 502–513.","short":"A. Dinarina, C. Pugieux, M. Corral, M. Loose, J. Spatz, É. Karsenti, F. Nédélec, Cell 138 (2009) 502–513.","mla":"Dinarina, Ana, et al. “Chromatin Shapes the Mitotic Spindle.” <i>Cell</i>, vol. 138, no. 3, Cell Press, 2009, pp. 502–13, doi:<a href=\"https://doi.org/10.1016/j.cell.2009.05.027\">10.1016/j.cell.2009.05.027</a>.","apa":"Dinarina, A., Pugieux, C., Corral, M., Loose, M., Spatz, J., Karsenti, É., &#38; Nédélec, F. (2009). Chromatin shapes the mitotic spindle. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2009.05.027\">https://doi.org/10.1016/j.cell.2009.05.027</a>"},"issue":"3","page":"502 - 513","author":[{"last_name":"Dinarina","full_name":"Dinarina, Ana","first_name":"Ana"},{"first_name":"Céline","last_name":"Pugieux","full_name":"Pugieux, Céline"},{"first_name":"Maria","full_name":"Corral, Maria M","last_name":"Corral"},{"orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","last_name":"Loose","full_name":"Martin Loose"},{"first_name":"Joachim","last_name":"Spatz","full_name":"Spatz, Joachim P"},{"first_name":"Éric","last_name":"Karsenti","full_name":"Karsenti, Éric"},{"first_name":"François","full_name":"Nédélec, François J","last_name":"Nédélec"}],"day":"07","publication_status":"published","status":"public","_id":"1984","title":"Chromatin shapes the mitotic spindle","type":"journal_article","publist_id":"5100","date_created":"2018-12-11T11:55:03Z","acknowledgement":"This work was supported by EU contract LSHG-CT-2004-503568 ComBio, the Spanish ministry of education (M.M.C.), and EU-STREP active BioMics (A.D.). Research in the Nedelec lab is funded by the Center for Modeling and Simulation in the Biosciences (http://www.bioms.de), the Volkswagenstiftung, and Human Frontier Science Program grant RGY84.","doi":"10.1016/j.cell.2009.05.027","date_updated":"2021-01-12T06:54:30Z","year":"2009"},{"abstract":[{"lang":"eng","text":"We measure the conductance and current–voltage characteristics of two amine-terminated molecular wires— 4,4'-diaminostilbene and bis-(4-aminophenyl)acetylene—by breaking Au point contacts in a molecular solution at room temperature. Histograms compiled from thousands of measurements show a slight increase in the molecular junction conductance (I/V) as the bias is increased to nearly 450 mV. Comparatively, similar conductance measurements made with 1,6-diaminohexane, a saturated molecule, demonstrate almost no bias dependence. We also present a new technique to measure a statistically defined current–voltage (I–V) curve. Application to all three molecules shows that 4,4'-diaminostilbene exhibits the largest increase in differential conductance as a function of applied bias. This indicates that the predominant transport channel for 4,4'-diaminostilbene (the highest occupied molecular orbital) is closer to the Fermi level of the metal than that of the other molecules, consistent with the trends observed in the molecular ionization potential. We find that junctions constructed with the conjugated molecules show greater noise in individual junctions and less structural stability, on average, at biases greater than 450 mV. In contrast, junctions formed with the alkane can sustain a bias of up to 900 mV. This significantly affects the statistically averaged I–V characteristic measured for the conjugated molecules at higher bias."}],"publication":"Nanotechnology","date_published":"2009-10-02T00:00:00Z","external_id":{"pmid":["19801764"]},"author":[{"last_name":"Widawsky","full_name":"Widawsky, J R","first_name":"J R"},{"first_name":"M","full_name":"Kamenetska, M","last_name":"Kamenetska"},{"first_name":"J","full_name":"Klare, J","last_name":"Klare"},{"first_name":"C","full_name":"Nuckolls, C","last_name":"Nuckolls"},{"last_name":"Steigerwald","full_name":"Steigerwald, M L","first_name":"M L"},{"full_name":"Hybertsen, M S","last_name":"Hybertsen","first_name":"M S"},{"full_name":"Venkataraman, Latha","last_name":"Venkataraman","first_name":"Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","orcid":"0000-0002-6957-6089"}],"day":"02","pmid":1,"oa_version":"None","issue":"43","type":"journal_article","title":"Measurement of voltage-dependent electronic transport across amine-linked single-molecular-wire junctions","language":[{"iso":"eng"}],"publication_status":"published","article_type":"original","doi":"10.1088/0957-4484/20/43/434009","article_number":"434009","year":"2009","publication_identifier":{"eissn":["1361-6528"],"issn":["0957-4484"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-09T13:49:43Z","intvolume":"        20","publisher":"IOP Publishing","month":"10","extern":"1","article_processing_charge":"No","volume":20,"OA_type":"closed access","quality_controlled":"1","citation":{"mla":"Widawsky, J. R., et al. “Measurement of Voltage-Dependent Electronic Transport across Amine-Linked Single-Molecular-Wire Junctions.” <i>Nanotechnology</i>, vol. 20, no. 43, 434009, IOP Publishing, 2009, doi:<a href=\"https://doi.org/10.1088/0957-4484/20/43/434009\">10.1088/0957-4484/20/43/434009</a>.","apa":"Widawsky, J. R., Kamenetska, M., Klare, J., Nuckolls, C., Steigerwald, M. L., Hybertsen, M. S., &#38; Venkataraman, L. (2009). Measurement of voltage-dependent electronic transport across amine-linked single-molecular-wire junctions. <i>Nanotechnology</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/0957-4484/20/43/434009\">https://doi.org/10.1088/0957-4484/20/43/434009</a>","short":"J.R. Widawsky, M. Kamenetska, J. Klare, C. Nuckolls, M.L. Steigerwald, M.S. Hybertsen, L. Venkataraman, Nanotechnology 20 (2009).","ista":"Widawsky JR, Kamenetska M, Klare J, Nuckolls C, Steigerwald ML, Hybertsen MS, Venkataraman L. 2009. Measurement of voltage-dependent electronic transport across amine-linked single-molecular-wire junctions. Nanotechnology. 20(43), 434009.","ama":"Widawsky JR, Kamenetska M, Klare J, et al. Measurement of voltage-dependent electronic transport across amine-linked single-molecular-wire junctions. <i>Nanotechnology</i>. 2009;20(43). doi:<a href=\"https://doi.org/10.1088/0957-4484/20/43/434009\">10.1088/0957-4484/20/43/434009</a>","chicago":"Widawsky, J R, M Kamenetska, J Klare, C Nuckolls, M L Steigerwald, M S Hybertsen, and Latha Venkataraman. “Measurement of Voltage-Dependent Electronic Transport across Amine-Linked Single-Molecular-Wire Junctions.” <i>Nanotechnology</i>. IOP Publishing, 2009. <a href=\"https://doi.org/10.1088/0957-4484/20/43/434009\">https://doi.org/10.1088/0957-4484/20/43/434009</a>.","ieee":"J. R. Widawsky <i>et al.</i>, “Measurement of voltage-dependent electronic transport across amine-linked single-molecular-wire junctions,” <i>Nanotechnology</i>, vol. 20, no. 43. IOP Publishing, 2009."},"scopus_import":"1","status":"public","_id":"18028","date_updated":"2025-01-03T10:12:29Z"},{"publication_status":"published","article_type":"letter_note","type":"journal_article","title":"Frustrated rotations in single-molecule junctions","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-09T13:51:45Z","doi":"10.1021/ja903731m","publication_identifier":{"issn":["0002-7863"],"eissn":["1520-5126"]},"year":"2009","publication":"Journal of the American Chemical Society","date_published":"2009-07-17T00:00:00Z","external_id":{"pmid":["19722660"]},"abstract":[{"text":"We compare the conductance of 1,4-bis(methylthio)benzene with that of 2,3,6,7-tetrahydrobenzo[1,2-b:4,5-b′]dithiophene and the conductance of 1,4-bis(methylseleno)benzene with that of 2,3,6,7-tetrahydrobenzo[1,2-b:4,5-b′]diselenophene and show explicitly that the orientation of an Au−S or Au−Se bond relative to the aromatic π system controls electron transport through conjugated molecules. Specifically, we have found that the conduction pathway connects the Au electrodes to the aromatic π-system via the chalcogen p lone pairs, and greater overlaps among these components lead to higher conductivity through the molecular junction.","lang":"eng"}],"oa_version":"None","pmid":1,"issue":"31","author":[{"full_name":"Park, Young S.","last_name":"Park","first_name":"Young S."},{"first_name":"Jonathan R.","full_name":"Widawsky, Jonathan R.","last_name":"Widawsky"},{"last_name":"Kamenetska","full_name":"Kamenetska, Maria","first_name":"Maria"},{"first_name":"Michael L.","last_name":"Steigerwald","full_name":"Steigerwald, Michael L."},{"first_name":"Mark S.","full_name":"Hybertsen, Mark S.","last_name":"Hybertsen"},{"last_name":"Nuckolls","full_name":"Nuckolls, Colin","first_name":"Colin"},{"orcid":"0000-0002-6957-6089","last_name":"Venkataraman","full_name":"Venkataraman, Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","first_name":"Latha"}],"day":"17","status":"public","_id":"18029","scopus_import":"1","date_updated":"2025-01-03T10:14:29Z","month":"07","extern":"1","intvolume":"       131","publisher":"American Chemical Society","OA_type":"closed access","quality_controlled":"1","volume":131,"citation":{"chicago":"Park, Young S., Jonathan R. Widawsky, Maria Kamenetska, Michael L. Steigerwald, Mark S. Hybertsen, Colin Nuckolls, and Latha Venkataraman. “Frustrated Rotations in Single-Molecule Junctions.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2009. <a href=\"https://doi.org/10.1021/ja903731m\">https://doi.org/10.1021/ja903731m</a>.","ama":"Park YS, Widawsky JR, Kamenetska M, et al. Frustrated rotations in single-molecule junctions. <i>Journal of the American Chemical Society</i>. 2009;131(31):10820-10821. doi:<a href=\"https://doi.org/10.1021/ja903731m\">10.1021/ja903731m</a>","ieee":"Y. S. Park <i>et al.</i>, “Frustrated rotations in single-molecule junctions,” <i>Journal of the American Chemical Society</i>, vol. 131, no. 31. American Chemical Society, pp. 10820–10821, 2009.","apa":"Park, Y. S., Widawsky, J. R., Kamenetska, M., Steigerwald, M. L., Hybertsen, M. S., Nuckolls, C., &#38; Venkataraman, L. (2009). Frustrated rotations in single-molecule junctions. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/ja903731m\">https://doi.org/10.1021/ja903731m</a>","mla":"Park, Young S., et al. “Frustrated Rotations in Single-Molecule Junctions.” <i>Journal of the American Chemical Society</i>, vol. 131, no. 31, American Chemical Society, 2009, pp. 10820–21, doi:<a href=\"https://doi.org/10.1021/ja903731m\">10.1021/ja903731m</a>.","short":"Y.S. Park, J.R. Widawsky, M. Kamenetska, M.L. Steigerwald, M.S. Hybertsen, C. Nuckolls, L. Venkataraman, Journal of the American Chemical Society 131 (2009) 10820–10821.","ista":"Park YS, Widawsky JR, Kamenetska M, Steigerwald ML, Hybertsen MS, Nuckolls C, Venkataraman L. 2009. Frustrated rotations in single-molecule junctions. Journal of the American Chemical Society. 131(31), 10820–10821."},"page":"10820-10821","article_processing_charge":"No"},{"abstract":[{"lang":"eng","text":"We analyze the formation and evolution statistics of single-molecule junctions bonded to gold electrodes using amine, methyl sulfide, and dimethyl phosphine link groups by measuring conductance as a function of junction elongation. For each link, the maximum elongation and formation probability increase with molecular length, strongly suggesting that processes other than just metal-molecule bond breakage play a key role in junction evolution under stress. Density functional theory calculations of adiabatic trajectories show sequences of atomic-scale changes in junction structure, including shifts in the attachment point, that account for the long conductance plateau lengths observed."}],"publication":"Physical Review Letters","external_id":{"pmid":["19392306"],"arxiv":["0901.1134"]},"date_published":"2009-03-24T00:00:00Z","author":[{"last_name":"Kamenetska","full_name":"Kamenetska, M.","first_name":"M."},{"first_name":"M.","full_name":"Koentopp, M.","last_name":"Koentopp"},{"first_name":"A. C.","full_name":"Whalley, A. C.","last_name":"Whalley"},{"last_name":"Park","full_name":"Park, Y. S.","first_name":"Y. S."},{"last_name":"Steigerwald","full_name":"Steigerwald, M. L.","first_name":"M. L."},{"last_name":"Nuckolls","full_name":"Nuckolls, C.","first_name":"C."},{"last_name":"Hybertsen","full_name":"Hybertsen, M. S.","first_name":"M. S."},{"orcid":"0000-0002-6957-6089","last_name":"Venkataraman","full_name":"Venkataraman, Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","first_name":"Latha"}],"day":"24","oa_version":"Preprint","pmid":1,"main_file_link":[{"url":"https://arxiv.org/abs/0901.1134","open_access":"1"}],"issue":"12","title":"Formation and evolution of single-molecule junctions","type":"journal_article","language":[{"iso":"eng"}],"publication_status":"published","article_type":"original","doi":"10.1103/physrevlett.102.126803","article_number":"126803","publication_identifier":{"eissn":["1079-7114"],"issn":["0031-9007"]},"year":"2009","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-09T13:52:37Z","intvolume":"       102","publisher":"American Physical Society","OA_place":"repository","month":"03","extern":"1","article_processing_charge":"No","quality_controlled":"1","volume":102,"OA_type":"green","citation":{"ama":"Kamenetska M, Koentopp M, Whalley AC, et al. Formation and evolution of single-molecule junctions. <i>Physical Review Letters</i>. 2009;102(12). doi:<a href=\"https://doi.org/10.1103/physrevlett.102.126803\">10.1103/physrevlett.102.126803</a>","chicago":"Kamenetska, M., M. Koentopp, A. C. Whalley, Y. S. Park, M. L. Steigerwald, C. Nuckolls, M. S. Hybertsen, and Latha Venkataraman. “Formation and Evolution of Single-Molecule Junctions.” <i>Physical Review Letters</i>. American Physical Society, 2009. <a href=\"https://doi.org/10.1103/physrevlett.102.126803\">https://doi.org/10.1103/physrevlett.102.126803</a>.","ieee":"M. Kamenetska <i>et al.</i>, “Formation and evolution of single-molecule junctions,” <i>Physical Review Letters</i>, vol. 102, no. 12. American Physical Society, 2009.","mla":"Kamenetska, M., et al. “Formation and Evolution of Single-Molecule Junctions.” <i>Physical Review Letters</i>, vol. 102, no. 12, 126803, American Physical Society, 2009, doi:<a href=\"https://doi.org/10.1103/physrevlett.102.126803\">10.1103/physrevlett.102.126803</a>.","apa":"Kamenetska, M., Koentopp, M., Whalley, A. C., Park, Y. S., Steigerwald, M. L., Nuckolls, C., … Venkataraman, L. (2009). Formation and evolution of single-molecule junctions. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevlett.102.126803\">https://doi.org/10.1103/physrevlett.102.126803</a>","ista":"Kamenetska M, Koentopp M, Whalley AC, Park YS, Steigerwald ML, Nuckolls C, Hybertsen MS, Venkataraman L. 2009. Formation and evolution of single-molecule junctions. Physical Review Letters. 102(12), 126803.","short":"M. Kamenetska, M. Koentopp, A.C. Whalley, Y.S. Park, M.L. Steigerwald, C. Nuckolls, M.S. Hybertsen, L. Venkataraman, Physical Review Letters 102 (2009)."},"arxiv":1,"scopus_import":"1","status":"public","_id":"18030","date_updated":"2025-01-03T10:17:01Z","oa":1},{"type":"journal_article","title":"Mechanically controlled binary conductance switching of a single-molecule junction","language":[{"iso":"eng"}],"publication_status":"published","article_type":"letter_note","doi":"10.1038/nnano.2009.10","publication_identifier":{"eissn":["1748-3395"],"issn":["1748-3387"]},"year":"2009","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-09T13:53:36Z","abstract":[{"lang":"eng","text":"Molecular-scale components are expected to be central to the realization of nanoscale electronic devices1,2,3. Although molecular-scale switching has been reported in atomic quantum point contacts4,5,6, single-molecule junctions provide the additional flexibility of tuning the on/off conductance states through molecular design. To date, switching in single-molecule junctions has been attributed to changes in the conformation or charge state of the molecule7,8,9,10,11,12. Here, we demonstrate reversible binary switching in a single-molecule junction by mechanical control of the metal–molecule contact geometry. We show that 4,4'-bipyridine–gold single-molecule junctions can be reversibly switched between two conductance states through repeated junction elongation and compression. Using first-principles calculations, we attribute the different measured conductance states to distinct contact geometries at the flexible but stable nitrogen–gold bond: conductance is low when the N–Au bond is perpendicular to the conducting π-system, and high otherwise. This switching mechanism, inherent to the pyridine–gold link, could form the basis of a new class of mechanically activated single-molecule switches."}],"publication":"Nature Nanotechnology","date_published":"2009-04-01T00:00:00Z","external_id":{"pmid":["19350032"],"arxiv":["0901.1139"]},"author":[{"first_name":"Su Ying","last_name":"Quek","full_name":"Quek, Su Ying"},{"full_name":"Kamenetska, Maria","last_name":"Kamenetska","first_name":"Maria"},{"full_name":"Steigerwald, Michael L.","last_name":"Steigerwald","first_name":"Michael L."},{"last_name":"Choi","full_name":"Choi, Hyoung Joon","first_name":"Hyoung Joon"},{"first_name":"Steven G.","last_name":"Louie","full_name":"Louie, Steven G."},{"last_name":"Hybertsen","full_name":"Hybertsen, Mark S.","first_name":"Mark S."},{"first_name":"J. B.","last_name":"Neaton","full_name":"Neaton, J. B."},{"orcid":"0000-0002-6957-6089","full_name":"Venkataraman, Latha","last_name":"Venkataraman","first_name":"Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf"}],"day":"01","oa_version":"Preprint","pmid":1,"issue":"4","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/0901.1139"}],"scopus_import":"1","arxiv":1,"status":"public","_id":"18031","date_updated":"2025-01-03T10:42:35Z","oa":1,"intvolume":"         4","publisher":"Springer Nature","month":"04","OA_place":"repository","extern":"1","page":"230-234","article_processing_charge":"No","OA_type":"green","quality_controlled":"1","volume":4,"citation":{"ista":"Quek SY, Kamenetska M, Steigerwald ML, Choi HJ, Louie SG, Hybertsen MS, Neaton JB, Venkataraman L. 2009. Mechanically controlled binary conductance switching of a single-molecule junction. Nature Nanotechnology. 4(4), 230–234.","short":"S.Y. Quek, M. Kamenetska, M.L. Steigerwald, H.J. Choi, S.G. Louie, M.S. Hybertsen, J.B. Neaton, L. Venkataraman, Nature Nanotechnology 4 (2009) 230–234.","mla":"Quek, Su Ying, et al. “Mechanically Controlled Binary Conductance Switching of a Single-Molecule Junction.” <i>Nature Nanotechnology</i>, vol. 4, no. 4, Springer Nature, 2009, pp. 230–34, doi:<a href=\"https://doi.org/10.1038/nnano.2009.10\">10.1038/nnano.2009.10</a>.","apa":"Quek, S. Y., Kamenetska, M., Steigerwald, M. L., Choi, H. J., Louie, S. G., Hybertsen, M. S., … Venkataraman, L. (2009). Mechanically controlled binary conductance switching of a single-molecule junction. <i>Nature Nanotechnology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nnano.2009.10\">https://doi.org/10.1038/nnano.2009.10</a>","ieee":"S. Y. Quek <i>et al.</i>, “Mechanically controlled binary conductance switching of a single-molecule junction,” <i>Nature Nanotechnology</i>, vol. 4, no. 4. Springer Nature, pp. 230–234, 2009.","ama":"Quek SY, Kamenetska M, Steigerwald ML, et al. Mechanically controlled binary conductance switching of a single-molecule junction. <i>Nature Nanotechnology</i>. 2009;4(4):230-234. doi:<a href=\"https://doi.org/10.1038/nnano.2009.10\">10.1038/nnano.2009.10</a>","chicago":"Quek, Su Ying, Maria Kamenetska, Michael L. Steigerwald, Hyoung Joon Choi, Steven G. Louie, Mark S. Hybertsen, J. B. Neaton, and Latha Venkataraman. “Mechanically Controlled Binary Conductance Switching of a Single-Molecule Junction.” <i>Nature Nanotechnology</i>. Springer Nature, 2009. <a href=\"https://doi.org/10.1038/nnano.2009.10\">https://doi.org/10.1038/nnano.2009.10</a>."}},{"type":"journal_article","title":"Adaptive response by state-dependent inactivation","status":"public","publication_status":"published","_id":"1825","date_updated":"2021-01-12T06:53:26Z","doi":"10.1073/pnas.0902146106 ","year":"2009","publist_id":"5281","oa":1,"date_created":"2018-12-11T11:54:13Z","intvolume":"       106","abstract":[{"lang":"eng","text":"Many membrane channels and receptors exhibit adaptive, or desensitized, response to a strong sustained input stimulus. A key mechanism that underlies this response is the slow, activity-dependent removal of responding molecules to a pool which is unavailable to respond immediately to the input. This mechanism is implemented in different ways in various biological systems and has traditionally been studied separately for each. Here we highlight the common aspects of this principle, shared by many biological systems, and suggest a unifying theoretical framework. We study theoretically a class of models which describes the general mechanism and allows us to distinguish its universal from system-specific features. We show that under general conditions, regardless of the details of kinetics, molecule availability encodes an averaging over past activity and feeds back multiplicatively on the system output. The kinetics of recovery from unavailability determines the effective memory kernel inside the feedback branch, giving rise to a variety of system-specific forms of adaptive response—precise or input-dependent, exponential or power-law—as special cases of the same model. "}],"publisher":"National Academy of Sciences","month":"12","publication":"PNAS","date_published":"2009-12-01T00:00:00Z","extern":1,"author":[{"full_name":"Tamar Friedlander","last_name":"Friedlander","first_name":"Tamar","id":"36A5845C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Brenner","full_name":"Brenner, Naama","first_name":"Naama"}],"page":"22558 - 22563","day":"01","quality_controlled":0,"volume":106,"main_file_link":[{"open_access":"1","url":"http://www.pnas.org/content/106/52/22558.full.pdf"}],"issue":"52","citation":{"apa":"Friedlander, T., &#38; Brenner, N. (2009). Adaptive response by state-dependent inactivation. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.0902146106 \">https://doi.org/10.1073/pnas.0902146106 </a>","mla":"Friedlander, Tamar, and Naama Brenner. “Adaptive Response by State-Dependent Inactivation.” <i>PNAS</i>, vol. 106, no. 52, National Academy of Sciences, 2009, pp. 22558–63, doi:<a href=\"https://doi.org/10.1073/pnas.0902146106 \">10.1073/pnas.0902146106 </a>.","ista":"Friedlander T, Brenner N. 2009. Adaptive response by state-dependent inactivation. PNAS. 106(52), 22558–22563.","short":"T. Friedlander, N. Brenner, PNAS 106 (2009) 22558–22563.","ama":"Friedlander T, Brenner N. Adaptive response by state-dependent inactivation. <i>PNAS</i>. 2009;106(52):22558-22563. doi:<a href=\"https://doi.org/10.1073/pnas.0902146106 \">10.1073/pnas.0902146106 </a>","chicago":"Friedlander, Tamar, and Naama Brenner. “Adaptive Response by State-Dependent Inactivation.” <i>PNAS</i>. National Academy of Sciences, 2009. <a href=\"https://doi.org/10.1073/pnas.0902146106 \">https://doi.org/10.1073/pnas.0902146106 </a>.","ieee":"T. Friedlander and N. Brenner, “Adaptive response by state-dependent inactivation,” <i>PNAS</i>, vol. 106, no. 52. National Academy of Sciences, pp. 22558–22563, 2009."}}]